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protein-interaction

Here are 16 public repositories matching this topic...

debbiemarkslab / plmc

Inference of couplings in proteins and RNAs from sequence variation

protein-structure protein-interaction protein-sequences undirected-graphs sequence-alignments

Updated Jan 21, 2023
C

debbiemarkslab / EVzoom

Visually explore covariation in protein families

evolution protein-interaction protein-sequences undirected-graphs d3js amino-acids

Updated Dec 8, 2019
JavaScript

mims-harvard / life-tree

Evolution of protein interactomes across the tree of life

evolution network-science protein-interaction network-analysis biological-networks network-resilience

Updated Sep 30, 2019
C++

withai / Docked-protein-Interaction-ranking-using-graph-neural-networks

A deep learning library to rank protein complexes using graph neural networks

pytorch neural-networks protein-interaction graph-neural-networks graph-convolutional-neural-networks graph-attention-network protein-interaction-ranking

Updated Aug 26, 2020
Python

dhimmel / ppi

Compiling human protein–protein interactions

proteins rephetio hetionet genes protein-interaction ppi

Updated Mar 28, 2016
Jupyter Notebook

SaniyaKhullar / NetREm

Network Regression Embeddings reveal cell-type Transcription Factor coordination for target gene (TG) regulation

transcription-factors protein-interaction network-regularization gene-expression-profiles transcriptional-regulatory-network single-cell-analysis ppi-networks network-lasso multiomics-data gene-regulatory-network-inference bioinformatics-software transcription-factor-coordination regularization-embeddings regression-embeddings predictor-interactions network-guided-regression regression-with-prior-knowledge network-based-inference netrem

Updated May 18, 2024
Jupyter Notebook

CansuDincer / BEstimate

BEstimate, a Python module that systematically analyses guide RNA (gRNA) targetable sites across given sequences for given Base Editors, and functional and clinical effects of the potential edits on the resulting proteins.

protein-interaction genome-editing grna vep-annotation base-editors

Updated Nov 1, 2024
Python

matheuspokkkk / ppdistance

defines the interface region of a protein complex making possible to calculate the i_rmsd between native and predicted structures following the CAPRI criteria

pdb protein-data-bank protein-structure protein protein-interaction protein-protein-interaction pdb-files

Updated May 11, 2018
C

amamory / seriation

An efficient implementation of the Seriation problem which 'finds a suitable linear order for a set of objects'. It has been used to order a network of proteins such that 'related' nodes are closer in the other.

protein-interaction seriation bioinformatics-algorithms

Updated Jan 25, 2021
C

PPiMapBuilder / ppi-query

Protein-protein interaction network (with orthology) querying library

clojure protein-interaction protein-protein-interaction orthology-relationships psicquic inparanoid

Updated Oct 19, 2022
Clojure

reimandlab / needleplot

Another needleplot for mutation data, used by ActiveDriverDB

visualization bioinformatics plot protein protein-interaction ptm mutation-analysis mutation-data

Updated Nov 1, 2020
JavaScript

abgthEK / Protein-Interaction-Analysis

Using the interface residues as input (interface chain known), finding the interacting partners, node & edge types

protein-interaction

Updated Aug 6, 2021
Python

catherinesyeh / protein-viz

Investigating Protein Interaction Networks with Python Visualizations

python bioinformatics binder numpy jupyter-notebook computational-biology pandas networkx protein-interaction matplotlib ipywidgets interactive-visualizations protein-protein-interaction protein-network nxviz

Updated May 7, 2021
Jupyter Notebook

NataliaKudr / ProteinNetwork

Protein-protein interaction identifier

java protein java8 protein-interaction protein-network

Updated Sep 4, 2018

BIMSBbioinfo / collab_meyer_selbach_glut1

Reproduce bioinformatics analysis for the paper Meyer, K. et al., Cell, 2018.

r protein-interaction polymorphism clinvar peptides protein-disorder short-linear-motifs disease-causing-mutations humsavar

Updated Nov 21, 2018

dhimmel / opcendo

Candidate OPC–endothelial cell interactors

string gene-ontology oligodendrocyte-precursor-cells protein-interaction

Updated May 3, 2016
Jupyter Notebook

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